NP-MRD: Showing NP-Card for heptadeca-1,16-dien-4,6-diyne-3,9,10-triol (NP0253904)

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Record Information

Version

2.0

Created at

2022-09-07 17:54:57 UTC

Updated at

2022-09-07 17:54:58 UTC

NP-MRD ID

NP0253904

Secondary Accession Numbers

None

Natural Product Identification

Common Name

heptadeca-1,16-dien-4,6-diyne-3,9,10-triol

Description

Ginsenoyne C belongs to the class of organic compounds known as long-chain fatty alcohols. These are fatty alcohols that have an aliphatic tail of 13 to 21 carbon atoms. Thus, ginsenoyne C is considered to be a fatty alcohol lipid molecule. Ginsenoyne C is a very hydrophobic molecule, practically insoluble (in water), and relatively neutral. Outside of the human body, Ginsenoyne C has been detected, but not quantified in, tea. heptadeca-1,16-dien-4,6-diyne-3,9,10-triol is found in Panax ginseng and Panax japonicus. This could make ginsenoyne C a potential biomarker for the consumption of these foods.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 44 43  0  0  0  0  0  0  0  0999 V2000
   -5.9605   -0.2744    2.1547 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.2913    0.5799    1.2165 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.6515    0.6825   -0.1084 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3637   -0.0930   -0.2220 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2828    0.4436    0.6825 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0317   -0.3859    0.5634 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4447   -0.4189   -0.8136 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1834   -1.2850   -0.7449 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.7154   -0.7409    0.1360 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3659   -1.4740   -2.1185 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.4671   -2.3548   -1.9831 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9521   -0.1865   -2.6402 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0424    0.2675   -1.7779 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9731    0.6493   -1.0737 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0458    1.0678   -0.2499 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9653    1.4050    0.4585 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0887    1.7917    1.3278 C   0  0  2  0  0  0  0  0  0  0  0  0
    6.5942    2.9742    0.8489 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.1180    0.6922    1.3466 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.7119   -0.5225    1.0265 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1938   -1.0250    2.1236 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.5285   -0.2334    3.1018 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.1177    1.3119    1.3809 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4213    1.7808   -0.2504 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3716    0.3736   -0.9185 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9690   -0.0509   -1.2722 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5383   -1.1623    0.0025 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0594    1.5231    0.4019 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5715    0.4853    1.7405 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2503   -0.0708    1.2779 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2940   -1.4603    0.8055 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1609    0.5639   -1.1928 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1853   -0.8903   -1.4990 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4697   -2.3219   -0.3835 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4830    0.2242    0.2960 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3480   -1.8998   -2.8318 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1201   -2.0173   -1.3488 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2212    0.6404   -2.6908 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3364   -0.4222   -3.6753 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7318    1.8932    2.3765 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.5441    3.0516    1.1534 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1404    0.8510    1.6025 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.6803   -0.7522    0.7551 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.3919   -1.3711    1.0157 H   0  0  0  0  0  0  0  0  0  0  0  0
  9  8  1  0
  8  7  1  0
  7  6  1  0
  6  5  1  0
  5  4  1  0
  4  3  1  0
  3  2  1  0
  2  1  2  3
  8 10  1  0
 10 11  1  0
 10 12  1  0
 12 13  1  0
 13 14  3  0
 14 15  1  0
 15 16  3  0
 16 17  1  0
 17 18  1  0
 17 19  1  0
 19 20  2  3
  9 35  1  0
  8 34  1  1
  7 32  1  0
  7 33  1  0
  6 30  1  0
  6 31  1  0
  5 28  1  0
  5 29  1  0
  4 26  1  0
  4 27  1  0
  3 24  1  0
  3 25  1  0
  2 23  1  0
  1 21  1  0
  1 22  1  0
 10 36  1  6
 11 37  1  0
 12 38  1  0
 12 39  1  0
 17 40  1  1
 18 41  1  0
 19 42  1  0
 20 43  1  0
 20 44  1  0
M  END

  Mrv0541 05061310462D          

 20 19  0  0  0  0            999 V2000
    3.8230   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   15.2546   -0.0809    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5375   -2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.5401   -0.4934    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2520   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9664   -2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.6809   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.6822   -1.3184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.3967   -0.9059    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.3954   -2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.9677   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.1112   -0.4934    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.1099   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.2533   -2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8256   -0.0809    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.8243   -2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.5388   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8256    0.7441    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.8243   -2.9684    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    9.5388   -0.9059    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  3  1  2  0  0  0  0
  4  2  2  0  0  0  0
  5  3  1  0  0  0  0
  6  5  1  0  0  0  0
  7  6  1  0  0  0  0
  9  8  1  0  0  0  0
 10  7  1  0  0  0  0
 11  8  3  0  0  0  0
 12  9  3  0  0  0  0
 13 10  1  0  0  0  0
 14 11  1  0  0  0  0
 15  4  1  0  0  0  0
 15 12  1  0  0  0  0
 16 13  1  0  0  0  0
 17 14  1  0  0  0  0
 17 16  1  0  0  0  0
 18 15  1  0  0  0  0
 19 16  1  0  0  0  0
 20 17  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0253904

> <DATABASE_NAME>
NP-MRD

> <SMILES>
OC(CCCCCC=C)C(O)CC#CC#CC(O)C=C

> <INCHI_IDENTIFIER>
InChI=1S/C17H24O3/c1-3-5-6-7-10-13-16(19)17(20)14-11-8-9-12-15(18)4-2/h3-4,15-20H,1-2,5-7,10,13-14H2

> <INCHI_KEY>
WNVDKDQMWFSCPI-UHFFFAOYSA-N

> <FORMULA>
C17H24O3

> <MOLECULAR_WEIGHT>
276.3707

> <EXACT_MASS>
276.172544634

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_AVERAGE_POLARIZABILITY>
32.87172664885233

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
heptadeca-1,16-dien-4,6-diyne-3,9,10-triol

> <ALOGPS_LOGP>
2.72

> <JCHEM_LOGP>
3.0463048233333323

> <ALOGPS_LOGS>
-4.10

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.812265652785989

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.139141287185904

> <JCHEM_PKA_STRONGEST_BASIC>
-3.1580319393359835

> <JCHEM_POLAR_SURFACE_AREA>
60.69

> <JCHEM_REFRACTIVITY>
83.22269999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
12

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.19e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
heptadeca-1,16-dien-4,6-diyne-3,9,10-triol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 06-MAY-13   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   06-MAY-13         0                                  
HETATM    1  C   UNK     0       7.136  -3.231   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      28.475  -0.151   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       8.470  -4.001   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      27.142  -0.921   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       9.804  -3.231   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      11.137  -4.001   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      12.471  -3.231   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      21.807  -2.461   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      23.141  -1.691   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      13.805  -4.001   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      20.473  -3.231   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      24.474  -0.921   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      15.138  -3.231   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      19.139  -4.001   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      25.808  -0.151   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      16.472  -4.001   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      17.806  -3.231   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0      25.808   1.389   0.000  0.00  0.00           O+0
HETATM   19  O   UNK     0      16.472  -5.541   0.000  0.00  0.00           O+0
HETATM   20  O   UNK     0      17.806  -1.691   0.000  0.00  0.00           O+0
CONECT    1    3                                                            
CONECT    2    4                                                            
CONECT    3    1    5                                                       
CONECT    4    2   15                                                       
CONECT    5    3    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6   10                                                       
CONECT    8    9   11                                                       
CONECT    9    8   12                                                       
CONECT   10    7   13                                                       
CONECT   11    8   14                                                       
CONECT   12    9   15                                                       
CONECT   13   10   16                                                       
CONECT   14   11   17                                                       
CONECT   15    4   12   18                                                  
CONECT   16   13   17   19                                                  
CONECT   17   14   16   20                                                  
CONECT   18   15                                                            
CONECT   19   16                                                            
CONECT   20   17                                                            
MASTER        0    0    0    0    0    0    0    0   20    0   38    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₇H₂₄O₃

Average Mass

276.3707 Da

Monoisotopic Mass

276.17254 Da

IUPAC Name

heptadeca-1,16-dien-4,6-diyne-3,9,10-triol

Traditional Name

heptadeca-1,16-dien-4,6-diyne-3,9,10-triol

CAS Registry Number

Not Available

SMILES

OC(CCCCCC=C)C(O)CC#CC#CC(O)C=C

InChI Identifier

InChI=1S/C17H24O3/c1-3-5-6-7-10-13-16(19)17(20)14-11-8-9-12-15(18)4-2/h3-4,15-20H,1-2,5-7,10,13-14H2

InChI Key

WNVDKDQMWFSCPI-UHFFFAOYSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Panax ginseng	LOTUS Database	35616633
Panax Japonicus	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as long-chain fatty alcohols. These are fatty alcohols that have an aliphatic tail of 13 to 21 carbon atoms.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Fatty Acyls

Sub Class

Fatty alcohols

Direct Parent

Long-chain fatty alcohols

Alternative Parents

Substituents

Long chain fatty alcohol
Secondary alcohol
Polyol
Organic oxygen compound
Hydrocarbon derivative
Organooxygen compound
Alcohol
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

Not Available

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	2.72	ALOGPS
logP	3.05	ChemAxon
logS	-4.1	ALOGPS
pKa (Strongest Acidic)	13.14	ChemAxon
pKa (Strongest Basic)	-3.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	60.69 Å²	ChemAxon
Rotatable Bond Count	12	ChemAxon
Refractivity	83.22 m³·mol⁻¹	ChemAxon
Polarizability	32.87 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

HMDB ID

HMDB0038994

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

FDB018482

KNApSAcK ID

Not Available

Chemspider ID

4476452

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

5317634

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for heptadeca-1,16-dien-4,6-diyne-3,9,10-triol (NP0253904)

MOL for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

3D MOL for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

3D SDF for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

3D-SDF for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

PDB for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

3D PDB for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

SMILES for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

INCHI for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

Structure for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)

3D Structure for NP0253904 (heptadeca-1,16-dien-4,6-diyne-3,9,10-triol)